SRR13402251 · Gut microbiome
MIMARKS Survey related sample from gut metagenome
complete
Gut analysis is paused. Unfinished samples are not negative results. This is a mixed-host collection, not a curated human-only cohort.
Open interactive sample report
Taxonomic abundances
| Species | Genus | Abundance (%) |
|---|---|---|
| Massilia varians | Massilia | 66.3505 |
| Massilia niastensis | Massilia | 4.8288 |
| Massilia oculi | Massilia | 3.2998 |
| Massilia violacea | Massilia | 3.1493 |
| Massilia niabensis | Massilia | 2.8255 |
| Massilia albidiflava | Massilia | 2.6408 |
| Methylobacterium aerolatum | Methylobacterium | 2.3496 |
| Massilia flava | Massilia | 1.7197 |
| Massilia suwonensis | Massilia | 1.5766 |
| Massilia jejuensis | Massilia | 1.5364 |
| Massilia armeniaca | Massilia | 0.8128 |
| Massilia putida | Massilia | 0.7828 |
| Massilia umbonata | Massilia | 0.7446 |
| Massilia aerilata | Massilia | 0.7257 |
| Methylobacterium indicum | Methylobacterium | 0.7060 |
| Massilia haematophila | Massilia | 0.6072 |
| Massilia glaciei | Massilia | 0.5932 |
| Methylobacterium thuringiense | Methylobacterium | 0.5436 |
| Cutibacterium acnes | Cutibacterium | 0.5335 |
| Methylobacterium trifolii | Methylobacterium | 0.5182 |
| Methylobacterium radiotolerans | Methylobacterium | 0.4654 |
| Massilia kyonggiensis | Massilia | 0.4389 |
| Methylobacterium terrae | Methylobacterium | 0.4280 |
| Massilia psychrophila | Massilia | 0.3987 |
| Massilia consociata | Massilia | 0.3976 |
| Methylobacterium phyllosphaerae | Methylobacterium | 0.3730 |
| Massilia plicata | Massilia | 0.3714 |
| Massilia arvi | Massilia | 0.2823 |
Saved public metadata
{
"run_accession": "SRR13402251",
"study_accession": "PRJNA691201",
"sample_accession": "SAMN17283463",
"instrument_platform": "OXFORD_NANOPORE",
"instrument_model": "GridION",
"library_strategy": "AMPLICON",
"library_source": "METAGENOMIC",
"library_selection": "PCR",
"read_count": "21004",
"base_count": "28755802",
"fastq_bytes": "25980345",
"fastq_ftp": "ftp.sra.ebi.ac.uk/vol1/fastq/SRR134/051/SRR13402251/SRR13402251_1.fastq.gz",
"sample_title": "MIMARKS Survey related sample from gut metagenome",
"scientific_name": "gut metagenome"
}Public files
Analysis provenance
{
"marker": "16S",
"pipeline": "Archaions v18.8",
"cohort": "Gut, mixed hosts; not curated as a human-only cohort",
"execution_state": "paused_by_user",
"sample_state": "complete",
"read_sampling": "First available reads; not random subsampling",
"input_sha256": "a8d6868b1c462c6a1081f69f63a63a2152f1f9c57235315d2fb164bdd1a15505",
"length_window_bp": [
1200,
2000
],
"median_read_length": 1658.0,
"quality_scores": "No measured quality scores in fetched FASTA",
"classifier_stats": {
"marker": "16s",
"pipeline": "v18.8",
"gpu": "RTX-PRO-6000",
"input_path": "volume-fastq-gz",
"reads_in": 20000,
"reads_skipped": 11733,
"elapsed_seconds": 1.6192432149999831,
"reads_submitted": 20000,
"reads_after_filter": 20000,
"adapter_scan": {
"sampled": 200,
"matched": 12,
"fraction": 0.06,
"adapters_found": {
"27F": 11,
"1492R_rc": 1
},
"should_trim": true
},
"porechop_ran": false,
"porechop_reason": "fast-path: no adapter trimming required"
},
"metadata_coverage": "Saved ENA run fields only. BioSample attributes, study abstracts and file MD5s have not been fetched for this panel."
}